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Detection of two homologous major QTLs and development of diagnostic molecular markers for sucrose content in peanut

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Abstract

Key message

We identified two stable and homologous major QTLs for sucrose content in peanut, and developed breeder-friendly molecular markers for marker-assisted selection breeding.

Abstract

Sucrose content is a crucial quality trait for edible peanuts, and increasing sucrose content is a key breeding objective. However, the genetic basis of sucrose content in peanut remains unclear, and major quantitative trait loci (QTLs) for sucrose content have yet to be identified. In this study, a high-density genetic map was constructed based on whole-genome re-sequencing data from a peanut RIL population. This map consisted of 2,042 bins and 24,142 SNP markers, making it one of the most comprehensive maps to date in terms of marker density. Two major QTLs (qSCA06.2 and qSCB06.2) were identified, explaining 31.41% and 24.13% of the phenotypic variance, respectively. Notably, these two QTLs were located in homologous genomic regions between the A and B subgenomes. The elite allele of qSCA06.2 was exclusive to Valencia-type, while the elite allele of qSCB06.2 existed in other peanut types. Importantly, the distribution of alleles from two homologous QTLs in the RIL population and diverse germplasm accessions consistently demonstrated that only the combination of elite allelic genotypes from both QTLs/genes resulted in a significantly dominant phenotype, accompanied by a substantial increase in sucrose content. The newly developed diagnostic markers for these QTLs were confirmed to be reliable and could facilitate future breeding efforts to enhance sucrose content using marker-assisted selection techniques. Overall, this study highlights the co-regulation of sucrose content by two major homologous QTLs/genes and provides valuable insights into the genetic basis of sucrose in peanuts.

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Data availability

The raw re-sequencing data of the RIL population have been submitted in the NCBI Sequence Read Archive (SRA) under BioProject accession number PRJNA987674.

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Acknowledgments

This work was supported by the National Natural Science Foundation of China (No. 32201770), the Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Science (CAAS-ASTIP-2021-OCRI), and Natural Science Foundation of Hubei Province (2022CFB332).

Funding

This work was supported by the National Natural Science Foundation of China (No. 32201770), the Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Science (CAAS-ASTIP-2021-OCRI), and Natural Science Foundation of Hubei Province (2022CFB332).

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  1. Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture and Rural Affairs, Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences (CAAS), Wuhan, 430062, China

    Zhihui Wang, Yue Zhang, Dongxin Huai, Yuning Chen, ** Kang, Liying Yan, Huifang Jiang, Yong Lei & Boshou Liao

  2. National Key Laboratory of Crop Genetic Improvement, National Center of Crop Molecular Breeding Technology, National Center of Oil Crop Improvement (Wuhan), Huazhong Agricultural University, Wuhan, 430070, China

    Zhihui Wang & Kede Liu

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Contributions

ZW, KL, YL, and BL designed the experiments. ZW analyzed the data and performed the bioinformatics analysis. ZW, YZ, YL, and BL wrote the manuscript. ZW, DH, YC, XW, YK, LY, and HJ performed the experiments. All authors read and approved the manuscript.

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Correspondence to Kede Liu, Yong Lei or Boshou Liao.

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Wang, Z., Zhang, Y., Huai, D. et al. Detection of two homologous major QTLs and development of diagnostic molecular markers for sucrose content in peanut. Theor Appl Genet 137, 61 (2024). https://doi.org/10.1007/s00122-024-04549-5

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